{ "bcoid": "GLY_000710", "title": "Rat O-GlcNAc Glycosylation Sites (O-GlcNAc Atlas)", "description": "The Rat O-GlcNAc Glycosylation Sites (O-GlcNAc Atlas) contains rat (taxid:10116) O-GlcNAc modifications ...", "filename": "rat_proteoform_glycosylation_sites_oglcnac_atlas.csv", "filetype": "csv", "categories": { "species": [ "Rattus norvegicus" ], "molecule": [ "Proteoform" ], "tag": [ "O-GlcNAc Glycosylation Sites (O-GlcNAc Atlas)" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "A0A0G2JUA5-1...", "5298..." ], [ "A0A0G2JUA5-1...", "5298..." ] ], "headers": [ "uniprotkb_ca...", "glycosylatio..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "glycosylation_site_uniprotkb" }, { "type": "string", "label": "amino_acid" }, { "type": "string", "label": "saccharide" }, { "type": "string", "label": 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"A0A8I6AMY7", "embryonic stem cells (ESCs)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "VKITF-T-KPSTQ", "228", "228", "Thr", "Thr", "T" ], [ "A0A8I6ARC1-1", "1037", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "A0A8I6ARC1", "protein_xref_oglcnac_atlas", "A0A8I6ARC1", "brain", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "UBERON:0000955", "brain", "", "", "PKDAT-S-HVLTD", "1037", "1037", "Ser", "Ser", "S" ], [ "A0A8I6ARC1-1", "1037", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "28657654", "protein_xref_oglcnac_atlas", "A0A8I6ARC1", "brain", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "UBERON:0000955", "brain", "", "", "PKDAT-S-HVLTD", "1037", "1037", "Ser", "Ser", "S" ], [ "B2GV06-1", "179", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "B2GV06", "protein_xref_oglcnac_atlas", "B2GV06", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "YNKDG-S-VAIAS", "179", "179", "Ser", "Ser", "S" ], [ "B2GV06-1", "179", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "27213235", "protein_xref_oglcnac_atlas", "B2GV06", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "YNKDG-S-VAIAS", "179", "179", "Ser", "Ser", "S" ], [ "B2GV06-1", "444", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "B2GV06", "protein_xref_oglcnac_atlas", "B2GV06", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "VTMEH-S-AKGNA", "444", "444", "Ser", "Ser", "S" ], [ "B2GV06-1", "444", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "27213235", "protein_xref_oglcnac_atlas", "B2GV06", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "VTMEH-S-AKGNA", "444", "444", "Ser", "Ser", "S" ], [ "B2GV06-1", "444", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "B2GV06", "protein_xref_oglcnac_atlas", "B2GV06", "heart", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "UBERON:0000948", "heart", "", "", "VTMEH-S-AKGNA", "444", "444", "Ser", "Ser", "S" ], [ "B2GV06-1", "444", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "27213235", "protein_xref_oglcnac_atlas", "B2GV06", "heart", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "UBERON:0000948", "heart", "", "", "VTMEH-S-AKGNA", "444", "444", "Ser", "Ser", "S" ], [ "B2RYS2-1", "10", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "B2RYS2", "protein_xref_oglcnac_atlas", "B2RYS2", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "PAVAA-S-SKWLD", "10", "10", "Ser", "Ser", "S" ], [ "B2RYS2-1", "10", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "27213235", "protein_xref_oglcnac_atlas", "B2RYS2", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "PAVAA-S-SKWLD", "10", "10", "Ser", "Ser", "S" ], [ "B2RYS2-1", "70", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "B2RYS2", "protein_xref_oglcnac_atlas", "B2RYS2", "heart (mitochondria)", "MS", "HTP", "This site was described as S69 of the protein sequence in the original paper", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "RALDL-S-MRHQI", "70", "70", "Ser", "Ser", "S" ], [ "B2RYS2-1", "70", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "27213235", "protein_xref_oglcnac_atlas", "B2RYS2", "heart (mitochondria)", "MS", "HTP", "This site was described as S69 of the protein sequence in the original paper", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "RALDL-S-MRHQI", "70", "70", "Ser", "Ser", "S" ], [ "B2RYX1-1", "12", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "B2RYX1", "protein_xref_oglcnac_atlas", "B2RYX1", "cardiac mitochondria", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "TSRLY-S-LLFRR", "12", "12", "Ser", "Ser", "S" ], [ "B2RYX1-1", "12", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "26446791", "protein_xref_oglcnac_atlas", "B2RYX1", "cardiac mitochondria", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "TSRLY-S-LLFRR", "12", "12", "Ser", "Ser", "S" ], [ "B2RYX1-1", "12", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "B2RYX1", "protein_xref_oglcnac_atlas", "B2RYX1", "heart", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "UBERON:0000948", "heart", "", "", "TSRLY-S-LLFRR", "12", "12", "Ser", "Ser", "S" ], [ "B2RYX1-1", "12", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "27213235", "protein_xref_oglcnac_atlas", "B2RYX1", "heart", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "UBERON:0000948", "heart", "", "", "TSRLY-S-LLFRR", "12", "12", "Ser", "Ser", "S" ], [ "B2RZD6-1", "44", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "B2RZD6", "protein_xref_oglcnac_atlas", "B2RZD6", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "FNPDV-S-WDRKN", "44", "44", "Ser", "Ser", "S" ], [ "B2RZD6-1", "44", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "26446791", "protein_xref_oglcnac_atlas", "B2RZD6", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "FNPDV-S-WDRKN", "44", "44", "Ser", "Ser", "S" ], [ "B2RZD6-1", "44", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "27213235", "protein_xref_oglcnac_atlas", "B2RZD6", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "FNPDV-S-WDRKN", "44", "44", "Ser", "Ser", "S" ], [ "B2RZD6-1", "44", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "B2RZD6", "protein_xref_oglcnac_atlas", "B2RZD6", "cardiac mitochondria", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "FNPDV-S-WDRKN", "44", "44", "Ser", "Ser", "S" ], [ "B2RZD6-1", "44", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "26446791", "protein_xref_oglcnac_atlas", "B2RZD6", "cardiac mitochondria", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "FNPDV-S-WDRKN", "44", "44", "Ser", "Ser", "S" ], [ "B2RZD6-1", "44", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "B2RZD6", "protein_xref_oglcnac_atlas", "B2RZD6", "heart", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "UBERON:0000948", "heart", "", "", "FNPDV-S-WDRKN", "44", "44", "Ser", "Ser", "S" ], [ "B2RZD6-1", "44", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "27213235", "protein_xref_oglcnac_atlas", "B2RZD6", "heart", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "UBERON:0000948", "heart", "", "", "FNPDV-S-WDRKN", "44", "44", "Ser", "Ser", "S" ], [ "B2RZD6-1", "67", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "B2RZD6", "protein_xref_oglcnac_atlas", "B2RZD6", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "QYKFY-S-VNVDY", "67", "67", "Ser", "Ser", "S" ], [ "B2RZD6-1", "67", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "26446791", "protein_xref_oglcnac_atlas", "B2RZD6", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "QYKFY-S-VNVDY", "67", "67", "Ser", "Ser", "S" ], [ "B5DEL8-1", "13", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "B5DEL8", "protein_xref_oglcnac_atlas", "B5DEL8", "cardiac mitochondria", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "KRLGI-S-LDRHF", "13", "13", "Ser", "Ser", "S" ], [ "B5DEL8-1", "13", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "26446791", "protein_xref_oglcnac_atlas", "B5DEL8", "cardiac mitochondria", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "KRLGI-S-LDRHF", "13", "13", "Ser", "Ser", "S" ], [ "B5DEL8-1", "13", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "B5DEL8", "protein_xref_oglcnac_atlas", "B5DEL8", "heart", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "UBERON:0000948", "heart", "", "", "KRLGI-S-LDRHF", "13", "13", "Ser", "Ser", "S" ], [ "B5DEL8-1", "13", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "27213235", "protein_xref_oglcnac_atlas", "B5DEL8", "heart", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "UBERON:0000948", "heart", "", "", "KRLGI-S-LDRHF", "13", "13", "Ser", "Ser", "S" ], [ "D3ZN95-1", "1148", "Thr", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "D3ZN95", "protein_xref_oglcnac_atlas", "D3ZN95", "brain", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "UBERON:0000955", "brain", "", "", "TVVRI-T-VAPGA", "1148", "1148", "Thr", "Thr", "T" ], [ "D3ZN95-1", "1148", "Thr", "G49108TO", "O-linked", "protein_xref_pubmed", "19692427", "protein_xref_oglcnac_atlas", "D3ZN95", "brain", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "UBERON:0000955", "brain", "", "", "TVVRI-T-VAPGA", "1148", "1148", "Thr", "Thr", "T" ], [ "D3ZUK4-1", "652", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "D3ZUK4", "protein_xref_oglcnac_atlas", "D3ZUK4", "embryonic stem cells (ESCs)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "PFPVV-S-AHNPI", "652", "652", "Ser", "Ser", "S" ], [ "D3ZUK4-1", "652", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "21606357", "protein_xref_oglcnac_atlas", "D3ZUK4", "embryonic stem cells (ESCs)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "PFPVV-S-AHNPI", "652", "652", "Ser", "Ser", "S" ], [ "D4A0T0-1", "151", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "D4A0T0", "protein_xref_oglcnac_atlas", "D4A0T0", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "LGAYY-S-ARKCL", "151", "151", "Ser", "Ser", "S" ], [ "D4A0T0-1", "151", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "27213235", "protein_xref_oglcnac_atlas", "D4A0T0", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "LGAYY-S-ARKCL", "151", "151", "Ser", "Ser", "S" ], [ "D4A0T0-1", "151", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "D4A0T0", "protein_xref_oglcnac_atlas", "D4A0T0", "heart", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "UBERON:0000948", "heart", "", "", "LGAYY-S-ARKCL", "151", "151", "Ser", "Ser", "S" ], [ "D4A0T0-1", "151", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "27213235", "protein_xref_oglcnac_atlas", "D4A0T0", "heart", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "UBERON:0000948", "heart", "", "", "LGAYY-S-ARKCL", "151", "151", "Ser", "Ser", "S" ], [ "D4A7L4-1", "39", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "D4A7L4", "protein_xref_oglcnac_atlas", "D4A7L4", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "AVIAP-S-GVERK", "39", "39", "Ser", "Ser", "S" ], [ "D4A7L4-1", "39", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "26446791", "protein_xref_oglcnac_atlas", "D4A7L4", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "AVIAP-S-GVERK", "39", "39", "Ser", "Ser", "S" ], [ "D4A7L4-1", "39", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "D4A7L4", "protein_xref_oglcnac_atlas", "D4A7L4", "cardiac mitochondria", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "AVIAP-S-GVERK", "39", "39", "Ser", "Ser", "S" ], [ "D4A7L4-1", "39", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "26446791", "protein_xref_oglcnac_atlas", "D4A7L4", "cardiac mitochondria", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "AVIAP-S-GVERK", "39", "39", "Ser", "Ser", "S" ], [ "D4A8H8-1", "1249", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "D4A8H8", "protein_xref_oglcnac_atlas", "D4A8H8", "brain", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "UBERON:0000955", "brain", "", "", "PPIHQ-S-LASS", "1249", "1249", "Ser", "Ser", "S" ], [ "D4A8H8-1", "1249", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "28657654", "protein_xref_oglcnac_atlas", "D4A8H8", "brain", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "UBERON:0000955", "brain", "", "", "PPIHQ-S-LASS", "1249", "1249", "Ser", "Ser", "S" ], [ "D4A8H8-1", "1252", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "D4A8H8", "protein_xref_oglcnac_atlas", "D4A8H8", "brain", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "UBERON:0000955", "brain", "", "", "HQSLA-S-S", "1252", "1252", "Ser", "Ser", "S" ], [ "D4A8H8-1", "1252", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "28657654", "protein_xref_oglcnac_atlas", "D4A8H8", "brain", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "UBERON:0000955", "brain", "", "", "HQSLA-S-S", "1252", "1252", "Ser", "Ser", "S" ], [ "F1LM47-1", "34", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "F1LM47", "protein_xref_oglcnac_atlas", "F1LM47", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "AQALG-S-SGLFN", "34", "34", "Ser", "Ser", "S" ], [ "F1LM47-1", "34", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "26446791", "protein_xref_oglcnac_atlas", "F1LM47", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "AQALG-S-SGLFN", "34", "34", "Ser", "Ser", "S" ], [ "F1LM47-1", "34", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "F1LM47", "protein_xref_oglcnac_atlas", "F1LM47", "cardiac mitochondria", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "AQALG-S-SGLFN", "34", "34", "Ser", "Ser", "S" ], [ "F1LM47-1", "34", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "26446791", "protein_xref_oglcnac_atlas", "F1LM47", "cardiac mitochondria", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "AQALG-S-SGLFN", "34", "34", "Ser", "Ser", "S" ], [ "F1LM47-1", "446", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "F1LM47", "protein_xref_oglcnac_atlas", "F1LM47", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "MVVKL-S-EIVTL", "446", "446", "Ser", "Ser", "S" ], [ "F1LM47-1", "446", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "26446791", "protein_xref_oglcnac_atlas", "F1LM47", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "MVVKL-S-EIVTL", "446", "446", "Ser", "Ser", "S" ], [ "F1LM47-1", "446", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "F1LM47", "protein_xref_oglcnac_atlas", "F1LM47", "heart", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "UBERON:0000948", "heart", "", "", "MVVKL-S-EIVTL", "446", "446", "Ser", "Ser", "S" ], [ "F1LM47-1", "446", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "27213235", "protein_xref_oglcnac_atlas", "F1LM47", "heart", "MS", "HTP", "Relative site occupancy ratios (ROR)' described in the original paper have been used as FC to calculate log2FC shown here.", "GlcNAc", "O-GlcNAcylation", "UBERON:0000948", "heart", "", "", "MVVKL-S-EIVTL", "446", "446", "Ser", "Ser", "S" ], [ "F1LM47-1", "81", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "F1LM47", "protein_xref_oglcnac_atlas", "F1LM47", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "GFVAK-S-SDEAY", "81", "81", "Ser", "Ser", "S" ], [ "F1LM47-1", "81", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "26446791", "protein_xref_oglcnac_atlas", "F1LM47", "heart (mitochondria)", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "OMIT:0009979", "Mitochondria, Heart", "", "", "GFVAK-S-SDEAY", "81", "81", "Ser", "Ser", "S" ], [ "G3V6S0-1", "2316", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "G3V6S0", "protein_xref_oglcnac_atlas", "G3V6S0", "brain", "MS", "HTP", "This site was described as S2323 in the original paper", "GlcNAc", "O-GlcNAcylation", "UBERON:0000955", "brain", "", "", "SASTQ-S-TPASS", "2316", "2316", "Ser", "Ser", "S" ], [ "G3V6S0-1", "2316", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "19692427", "protein_xref_oglcnac_atlas", "G3V6S0", "brain", "MS", "HTP", "This site was described as S2323 in the original paper", "GlcNAc", "O-GlcNAcylation", "UBERON:0000955", "brain", "", "", "SASTQ-S-TPASS", "2316", "2316", "Ser", "Ser", "S" ], [ "M0R7S5-1", "378", "Thr", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "M0R7S5", "protein_xref_oglcnac_atlas", "M0R7S5", "brain", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "UBERON:0000955", "brain", "", "", "NMAKG-T-VQTGL", "378", "378", "Thr", "Thr", "T" ], [ "M0R7S5-1", "378", "Thr", "G49108TO", "O-linked", "protein_xref_pubmed", "28657654", "protein_xref_oglcnac_atlas", "M0R7S5", "brain", "MS", "HTP", "", "GlcNAc", "O-GlcNAcylation", "UBERON:0000955", "brain", "", "", "NMAKG-T-VQTGL", "378", "378", "Thr", "Thr", "T" ], [ "O08769-1", "110", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "O08769", "protein_xref_oglcnac_atlas", "O08769", "Astrocytes", "MS, site-directed mutagenesis", "LTP", "No peptides info. provided; the peptide sequence is inferredfrom tryptic cleavage", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "ESLDV-S-GSRQA", "110", "110", "Ser", "Ser", "S" ], [ "O08769-1", "110", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "26562163", "protein_xref_oglcnac_atlas", "O08769", "Astrocytes", "MS, site-directed mutagenesis", "LTP", "No peptides info. provided; the peptide sequence is inferredfrom tryptic cleavage", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "ESLDV-S-GSRQA", "110", "110", "Ser", "Ser", "S" ], [ "O08769-1", "197", "Thr", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "O08769", "protein_xref_oglcnac_atlas", "O08769", "Astrocytes", "MS, site-directed mutagenesis", "LTP", "No peptides info. provided; the peptide sequence is inferredfrom tryptic cleavage", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "GLRRQ-T-", "197", "197", "Thr", "Thr", "T" ], [ "O08769-1", "197", "Thr", "G49108TO", "O-linked", "protein_xref_pubmed", "26562163", "protein_xref_oglcnac_atlas", "O08769", "Astrocytes", "MS, site-directed mutagenesis", "LTP", "No peptides info. provided; the peptide sequence is inferredfrom tryptic cleavage", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "GLRRQ-T-", "197", "197", "Thr", "Thr", "T" ], [ "O08769-1", "2", "Ser", "G49108TO", "O-linked", "protein_xref_oglcnac_atlas", "O08769", "protein_xref_oglcnac_atlas", "O08769", "Astrocytes", "MS, site-directed mutagenesis", "LTP", "No peptides info. provided; the peptide sequence is inferredfrom tryptic cleavage", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "M-S-NVRVS", "2", "2", "Ser", "Ser", "S" ], [ "O08769-1", "2", "Ser", "G49108TO", "O-linked", "protein_xref_pubmed", "26562163", "protein_xref_oglcnac_atlas", "O08769", "Astrocytes", "MS, site-directed mutagenesis", "LTP", "No peptides info. provided; the peptide sequence is inferredfrom tryptic cleavage", "GlcNAc", "O-GlcNAcylation", "", "", "", "", "M-S-NVRVS", "2", "2", "Ser", "Ser", "S" ] ] }, "readme": "Name\n - Rat O-GlcNAc Glycosylation Sites (O-GlcNAc Atlas)\n\nVersion\n - v-2.2.1\n\nCreated on\n - 2023-02-24T16:22:06.506Z\n\nModified on\n - 2023-03-06T20:15:01.311Z\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - Jungfeng Ma [junfeng.ma@georgetown.edu ]\n\nChecksum\n - \n\nUsability Domain\n - The Rat O-GlcNAc Glycosylation Sites (O-GlcNAc Atlas) contains rat (taxid:10116) O-GlcNAc modifications on Serine and Threonine extracted from the publication and mapped to the UniProtKB canonical accession and fasta sequence. The GlyTouCan ID for the O-GlcNAc is G49108TO\n\nDescription Domain\n Keywords\n - \n - O-GlcNAc\n - Serine\n\n Pipeline Steps\n - Step-1: The script maps the UniProtKB accesions to the UniProtKB Canonical accessions and also checks the position and amino acid of O-GlcNAc modified residue against UniProtKB Canonical sequences. The script also maps the sample type to correct sample term id and sample term name. \n\nExecution Domain\n Scripts - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/make-proteoform-dataset.py\n\n\n Software Prerequisites\n Name: Python\n Version: 2.7.5\n URI: https://www.python.org/download/releases/2.7.5/\n\nI/O Domain\n Input Subdomain\n Name: rat_protein_info_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_protein_info_uniprotkb.csv\n Name: rat_protein_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_protein_masterlist.csv\n Name: rat_protein_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_protein_recnames.csv\n Name: sample_mapping.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/misc/sample_mapping.csv\n Name: ambiguous_sites_version_2.0.csv\n URI: https:/data.glygen.org/ln2downloads/atlas_oglcnac/2022_10_20/ambiguous_sites_version_2.0.csv\n Name: unambiguous_sites_version_2.0.csv\n URI: https:/data.glygen.org/ln2downloads/atlas_oglcnac/2022_10_20/unambiguous_sites_version_2.0.csv\n Name: cellosaurus.txt\n URI: https:/data.glygen.org/ln2downloads/cellosaurus/2023_07_13/cellosaurus.txt\n Output Subdomain\n Name: rat_proteoform_glycosylation_sites_oglcnac_atlas.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_proteoform_glycosylation_sites_oglcnac_atlas.csv\n Name: rat_proteoform_glycosylation_sites_oglcnac_atlas.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/rat_proteoform_glycosylation_sites_oglcnac_atlas.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"176\"\n Name: \"glycosylation_site_uniprotkb\"\n Description: \"Site on the protein sequence of the UniProtKB entry where glycosylation is observed\"\n Unique Values: \"373\"\n Name: \"amino_acid\"\n Description: \"Three letter abbreviation code of the amino acid\"\n Unique Values: \"2\"\n Name: \"saccharide\"\n Description: \"Sugar\"\n Unique Values: \"1\"\n Name: \"glycosylation_type\"\n Description: \"Type of glycosylation (N/O/C/S linked glycosylation)\"\n Unique Values: \"1\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"2\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"211\"\n Name: \"src_xref_key\"\n Description: \"Source Xref key\"\n Unique Values: \"1\"\n Name: \"src_xref_id\"\n Description: \"Source X-ref ID\"\n Unique Values: \"176\"\n Name: \"sample_type\"\n Description: \"\"\n Unique Values: \"19\"\n Name: \"method\"\n Description: \"\"\n Unique Values: \"8\"\n Name: \"analytical_throughput\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"notes\"\n Description: \"Notes\"\n Unique Values: \"64\"\n Name: \"carb_name\"\n Description: \"carbohydrate name\"\n Unique Values: \"1\"\n Name: \"glycosylation_subtype\"\n Description: \"\"\n Unique Values: \"1\"\n Name: \"source_tissue_id\"\n Description: \"Tissue ID from GlyConnect\"\n Unique Values: \"9\"\n Name: \"source_tissue_name\"\n Description: \"Tissue NAME from GlyConnect\"\n Unique Values: \"9\"\n Name: \"source_cell_line_cellosaurus_id\"\n Description: \"cellosaurus ID of the cell line\"\n Unique Values: \"6\"\n Name: \"source_cell_line_cellosaurus_name\"\n Description: \"\"\n Unique Values: \"6\"\n Name: \"peptide\"\n Description: \"Protein peptide\"\n Unique Values: \"496\"\n Name: \"start_pos\"\n Description: \"Start position of the gene on the chromosome\"\n Unique Values: \"373\"\n Name: \"end_pos\"\n Description: \"End position of the gene on the chromosome\"\n Unique Values: \"373\"\n Name: \"start_aa\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"end_aa\"\n Description: \"\"\n Unique Values: \"2\"\n Name: \"site_seq\"\n Description: \"\"\n Unique Values: \"2\"", "downloadurl": "/ln2data/releases/data/v-2.2.1/reviewed/rat_proteoform_glycosylation_sites_oglcnac_atlas.csv" }